Issues

• enrichGO(keyType != "ENTREZID") drops genes with no ENTREZID and labels the result keytype "ENTREZID"

  YuLab-SMU/clusterProfiler#829 · Filter by author musharna opened on Oct 1, 2026

• Proper GSEA for multi-gene orthogroups/families

  YuLab-SMU/clusterProfiler#827 · Filter by author desmodus1984 opened on Sep 9, 2026

• enrichKEGG报错，无法连接使用

  YuLab-SMU/clusterProfiler#825 · Filter by author liujinkun007-alt opened on Aug 8, 2026
  3

• groupGO函数运行失败

  YuLab-SMU/clusterProfiler#815 · Filter by author jiangzhichao47-create opened on Apr 3, 2026
  1

• Has this plot been removed in the latest version of the R package?

  YuLab-SMU/clusterProfiler#799 · Filter by author JWDu0122 opened on Dec 9, 2025
  2

• cex_label_gene not working on v4.14.0

  YuLab-SMU/clusterProfiler#794 · Filter by author jacobHog opened on Dec 4, 2025
  1

• Why does enrichKEGG() output include Category / Subcategory, but in my case gseKEGG() does not?

  YuLab-SMU/clusterProfiler#787 · Filter by author laleoarrow opened on Oct 8, 2025
  1

• 4.16 bioconductor-clusterprofiler NOT available in https://anaconda.org/

  YuLab-SMU/clusterProfiler#784 · Filter by author ray1919 opened on Aug 27, 2025
  1

• Why doesn’t enrichKEGG() support the readable = TRUE parameter like enrichGO()?

  YuLab-SMU/clusterProfiler#782 · Filter by author Wang-Ande opened on Jul 22, 2025
  2

• enrichGO results not filtered by default pvalueCutoff

  YuLab-SMU/clusterProfiler#777 · Filter by author jtourig opened on Jun 25, 2025
  2

• Color scales in the new version cannot be easily manipulated

  YuLab-SMU/clusterProfiler#773 · Filter by author zuzkamat opened on May 16, 2025
  1

• cannot return enrichKEGG results with compareCluster

  YuLab-SMU/clusterProfiler#770 · Filter by author kristina-sakers opened on May 8, 2025
  2

• Cannot insert dotplot SVGs into Word or PowerPoint for macOS

  YuLab-SMU/clusterProfiler#769 · Filter by author nehawali21 opened on May 5, 2025
  4

• Unable to specfify ont = "BP" with compareCluster

  YuLab-SMU/clusterProfiler#767 · Filter by author CarrieMeeksPatience opened on Apr 24, 2025
  1

• Differences in gseGO and compareCluster (clusterProfiler) results

  YuLab-SMU/clusterProfiler#763 · Filter by author acebollada80 opened on Mar 26, 2025
  2

• i am receiving the following error with enrichkegg

  YuLab-SMU/clusterProfiler#759 · Filter by author vinodkumarvalluri opened on Feb 20, 2025
  7

• Unable to Install clusterprofiler on R v4.4.2

  YuLab-SMU/clusterProfiler#757 · Filter by author msewell12 opened on Feb 19, 2025
  1

• Comparecluster analysis is not working for me with same data

  YuLab-SMU/clusterProfiler#754 · Filter by author Sidragull57 opened on Jan 20, 2025
  7

• Meaning of compareClusterResults

  YuLab-SMU/clusterProfiler#752 · Filter by author IrelCM opened on Jan 15, 2025
  1

• Achieve COG/KOG enrichment analysis using clusterProfiler

  YuLab-SMU/clusterProfiler#751 · Filter by author toxin98 opened on Jan 13, 2025
  1

• Feature Request: Sign Test

  YuLab-SMU/clusterProfiler#750 · Filter by author DarioS opened on Jan 8, 2025

• Question about the result of GO:BP analysis: only one or two gene related to one GO term

  YuLab-SMU/clusterProfiler#749 · Filter by author Mancang-Yu opened on Dec 26, 2024
  1

• Can't update package to 4.12.6

  YuLab-SMU/clusterProfiler#746 · Filter by author fpiumi opened on Dec 2, 2024
  1

• feature request: LLM generated gene sets

  YuLab-SMU/clusterProfiler#745 · Filter by author zia1138 opened on Nov 27, 2024

• Unable to Convert Pathway ID to Gene Set

  YuLab-SMU/clusterProfiler#743 · Filter by author DarioS opened on Nov 21, 2024